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Multi-walled carbon nanotubes (MWCNTs) have significant environmental concerns for soil, water and ecosystems. Since their harmful effects on human health, including respiratory disease, they are considered dangerous substances. Thus, it is required to discover a constructive solution to decrease of MWCNT toxicity. Due to their high degradability, white rot and soft rot fungi have been used in the biodegradation of various pollutants. In this study, we evaluated the ability of native Iranian white and soft rot fungi to degrade MWCNTs mainly by means of dynamic light scattering (DLS) and surface charge measurement. In this regard, growth kinetics, CO2 and protein production, size, surface charge and pH change were measured. Continuous Raman spectroscopy, scanning electron microscope (SEM) and transmission electron microscope (TEM) imaging were carried out to detect the process of degradation. The results showed that the morphology, arrangement, size and diameter of MWCNTs were modified due to fungal degradation. The cytotoxicity of treated MWCNTs was determined by the MTT test. The results indicated that native Iranian white and soft rot fungi have a significant ability for degradation of MWCNTs. Furthermore, it could be concluded that fungal treatment could reduce the toxicity of MWCNTs and the best result was achieved in 500 ppm MWCNTs for Trichoderma sp. The activities of oxidative enzymes such as laccase, manganese peroxidase (MnP) and lignin peroxidase (LiP) were measured to determine the mechanism of degradation. Enzyme assays have suggested that these oxidising enzymes especially laccase might play a key role in the degradation of MWCNTs in white rot and soft rot fungi. The overall results confirmed the reproductive ability of Trichoderma sp. WF29 as a soft rot and two white rot fungi Irpex lacteus WF36 and Trametes versicolor to degrade MWCNT. [ABSTRACT FROM AUTHOR]